genome.fa.s1444.2.7.7.80.10.50.1000.7.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01001444.1 Hibiscus syriacus cultivar Beakdansim tig00002793_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2564052

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  7  of  12  ( 1400 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1517172--1517205	13	2.5	14	90	4	52	58	2	0	38	1.13
1517272--1517313	18	2.3	18	88	12	59	40	0	0	59	0.97
1524426--1524473	15	3.2	15	80	11	53	45	16	6	31	1.72
1531213--1531277	30	2.2	30	82	0	76	26	9	33	30	1.88
1532404--1532472	32	2.2	32	94	0	120	34	10	26	28	1.89
1554395--1554435	22	1.9	21	90	5	64	70	4	0	24	1.06
1555343--1555422	31	2.6	31	82	2	99	23	20	15	41	1.89
1556192--1556261	30	2.3	31	97	2	133	48	10	8	32	1.67
1556528--1556589	30	2.1	30	96	0	115	33	17	25	22	1.96
1556828--1556885	27	2.1	27	100	0	116	41	34	13	10	1.79
1561925--1562065	48	2.9	48	91	0	228	26	5	18	49	1.69
1564204--1564267	20	3.2	20	93	0	110	35	18	20	25	1.95
1564939--1564992	24	2.2	24	100	0	108	51	0	33	14	1.43
1565324--1565414	3	30.7	3	97	2	175	65	0	0	34	0.93
1568523--1568781	143	1.8	142	85	9	366	38	6	7	47	1.56
1570848--1570886	7	5.3	7	82	11	51	12	15	10	61	1.56
1570848--1570886	15	2.6	15	91	0	60	12	15	10	61	1.56
1570946--1571005	27	2.3	27	85	2	86	21	13	6	58	1.58
1570945--1570972	12	2.3	12	100	0	56	25	14	7	53	1.66
1573073--1573104	2	16.0	2	100	0	64	50	0	0	50	1.00
1573420--1573475	10	6.1	10	78	16	59	80	0	19	0	0.71
1573420--1573475	9	6.3	9	84	12	71	80	0	19	0	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1573413--1573475	26	2.4	26	86	5	83	80	0	19	0	0.70
1575733--1575952	114	1.9	114	90	0	350	33	15	20	30	1.94
1578472--1578527	23	2.5	23	88	2	87	33	8	14	42	1.77
1579364--1579594	76	3.0	76	96	0	417	23	19	21	34	1.96
1579610--1580201	113	5.2	112	82	8	672	38	15	19	26	1.91
1580678--1580743	20	3.3	20	67	12	55	53	9	19	18	1.71
1580642--1580783	39	3.6	39	88	1	196	49	9	21	19	1.77
1582330--1582588	143	1.8	142	86	8	382	38	6	8	47	1.58
1583142--1583167	12	2.2	12	100	0	52	15	30	19	34	1.93
1585418--1585460	15	2.8	16	82	10	63	51	0	41	6	1.29
1585678--1585775	21	4.8	20	88	2	133	33	11	23	31	1.90
1585678--1585775	41	2.4	40	86	5	133	33	11	23	31	1.90
1593068--1593106	20	2.0	20	84	0	51	23	7	23	46	1.78
1593266--1593305	21	1.9	21	89	0	62	10	25	40	25	1.86
1602964--1603030	23	2.9	23	79	0	80	25	22	23	28	1.99
1612220--1612257	20	1.9	20	88	0	58	34	18	21	26	1.96
1612634--1612875	123	2.0	123	100	0	484	39	8	14	37	1.76
1612854--1612883	2	15.0	2	100	0	60	50	0	0	50	1.00
1613190--1613293	18	5.8	18	94	0	163	18	24	33	24	1.97
1614179--1614235	25	2.3	25	96	0	105	42	15	17	24	1.88
1620768--1620825	28	2.1	28	96	0	107	56	8	17	17	1.64
1621279--1621321	6	7.2	6	100	0	86	34	0	65	0	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1623579--1625387	905	2.0	905	100	0	3618	33	19	17	29	1.95
1633275--1633316	19	2.1	21	86	8	61	30	4	7	57	1.47
1633893--1633968	36	2.1	36	85	7	100	47	1	3	47	1.29
1634114--1634151	20	1.9	20	88	0	58	21	26	10	42	1.85
1635924--1636040	60	2.0	60	81	3	137	27	17	23	31	1.97
1638183--1638235	22	2.4	22	84	12	72	3	9	3	83	0.90
1638200--1638232	13	2.5	13	90	9	50	0	6	6	87	0.65
1638183--1638235	11	4.7	11	81	11	63	3	9	3	83	0.90
1640637--1640703	22	3.0	22	88	0	98	13	17	25	43	1.86
1640671--1640715	14	3.2	13	77	17	54	15	17	26	40	1.90
1642020--1642156	35	3.9	35	78	1	148	29	19	16	33	1.94
1642173--1642303	63	2.1	63	94	0	226	24	23	26	25	2.00
1645902--1645961	23	2.6	23	91	0	102	26	28	28	16	1.97
1646756--1646786	13	2.4	13	100	0	62	29	16	25	29	1.96
1647252--1647280	14	2.0	15	93	6	51	68	0	24	6	1.13
1652838--1652897	23	2.6	23	78	0	75	26	25	26	21	2.00
1653121--1653180	31	2.0	30	83	9	77	36	25	1	36	1.66
1653223--1653284	25	2.4	25	81	2	70	43	8	11	37	1.70
1657341--1657381	14	2.9	14	92	0	55	58	19	2	19	1.50
1660946--1661284	170	2.0	170	100	0	678	28	27	16	26	1.97
1662334--1662414	27	3.0	27	100	0	162	11	18	22	48	1.79
1668386--1668419	16	2.1	16	88	0	50	35	8	23	32	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1669170--1669201	15	2.1	16	94	5	57	50	18	25	6	1.70
1679967--1680108	73	1.9	73	100	0	284	30	12	18	38	1.88
1682780--1683032	126	2.0	127	99	0	499	36	17	9	36	1.82
1684287--1684322	16	2.3	15	90	4	54	41	0	5	52	1.24
1684525--1684563	15	2.6	14	84	11	51	25	28	30	15	1.96
1684525--1684567	16	2.9	15	89	6	61	27	27	30	13	1.95
1689906--1689931	6	4.3	6	100	0	52	15	0	19	65	1.27
1690508--1690594	32	2.7	32	83	5	95	34	0	4	60	1.17
1690523--1690594	18	4.4	17	73	18	55	37	0	2	59	1.12
1690530--1690610	33	2.5	31	82	9	83	39	0	2	58	1.12
1692305--1692352	21	2.3	21	85	0	60	25	39	12	22	1.89
1692359--1692420	21	3.0	21	88	2	90	19	35	22	22	1.96
1692356--1692423	20	3.3	20	87	4	100	19	35	25	20	1.96
1692658--1692858	104	2.0	99	95	4	357	31	7	13	47	1.72
1692917--1693013	33	2.9	34	85	3	133	55	4	3	37	1.35
1692915--1693020	34	3.2	33	82	8	133	54	4	2	37	1.36
1693399--1694015	128	4.9	128	91	5	1012	32	19	25	22	1.97
1693401--1694015	250	2.5	250	92	4	996	32	19	25	22	1.97
1694083--1694123	8	5.2	8	82	5	57	36	29	0	34	1.58
1703742--1704112	185	2.0	186	98	1	719	29	16	22	31	1.95
1704970--1704997	6	4.7	6	100	0	56	14	17	50	17	1.79
1705365--1705408	21	2.1	21	91	0	70	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1706290--1706342	26	1.9	29	85	11	76	33	1	1	62	1.17
1706282--1706321	20	1.9	20	90	10	62	37	0	0	62	0.95
1706297--1706353	27	2.2	26	81	15	64	33	3	1	61	1.23
1719910--1719969	31	2.0	30	83	3	75	38	6	18	36	1.77
1719910--1719979	30	2.3	32	82	7	83	40	7	20	32	1.79
1721751--1721813	28	2.2	29	83	8	76	36	6	14	42	1.71
1721761--1721824	29	2.2	28	83	2	74	34	4	17	43	1.69
1721971--1722034	22	2.9	22	85	0	92	29	18	23	28	1.98
1741057--1741098	17	2.4	18	88	8	68	61	4	30	2	1.29
1741057--1741103	17	2.8	17	90	0	67	61	4	29	4	1.34
1742399--1742441	16	2.8	15	80	16	52	20	4	4	69	1.25
1754786--1754829	15	2.9	15	80	16	54	79	4	15	0	0.89
1755784--1755995	115	1.8	115	89	0	334	32	21	18	28	1.97
1755903--1756060	66	2.4	66	87	2	219	33	21	18	26	1.96
1755788--1756181	181	2.1	182	84	4	497	32	22	18	27	1.97
1755969--1756244	120	2.3	123	89	3	407	32	22	16	28	1.96
1757679--1757739	30	2.0	30	83	0	77	24	11	3	60	1.46
1757818--1757859	16	2.9	14	83	13	57	21	2	4	71	1.16
1758315--1758391	3	25.3	3	70	17	52	5	24	3	66	1.30
1759277--1759339	22	2.7	23	83	11	83	58	7	23	9	1.56
1759277--1759337	25	2.6	24	87	7	81	59	8	22	9	1.56
1759299--1759372	34	2.2	34	95	0	130	58	8	27	6	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1759308--1759387	19	4.4	20	73	21	79	57	10	25	7	1.57
1762830--1763492	331	2.0	332	99	0	1319	23	19	28	28	1.98
1764268--1764328	32	1.9	32	83	12	81	24	37	22	14	1.92
1767569--1767848	83	3.4	81	82	5	312	34	16	18	30	1.93
1767569--1767883	83	3.8	80	80	8	310	32	17	19	31	1.95
1767569--1767876	166	1.9	165	82	5	388	32	17	18	31	1.94
1767571--1767931	166	2.2	164	79	5	370	33	16	18	31	1.93
1767573--1768015	83	5.3	84	77	12	276	34	16	17	32	1.92
1767827--1768017	84	2.3	84	83	6	237	35	15	14	34	1.89
1767821--1768040	84	2.6	82	76	11	214	33	17	15	34	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12